Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01012136.1 Kokia drynarioides strain JFW-HI SEQ_127135, whole genome shotgun sequence

Parameters: 2 7 7 80 10 50 1000

Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 748

Length: 1247
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.37

Warning! 50 characters in sequence are not A, C, G, or T


Found at i:101 original size:34 final size:34

Alignment explanation


    Indices: 58--212  Score: 179
    Period size: 34  Copynumber: 4.5  Consensus size: 34

         48 AAGTCTTGAC

                       *               *      
         58 TCTTGATTTTGTTTTTATTATTGGAAAATTTAGG
          1 TCTTGATTTTGGTTTTATTATTGGAAATTTTAGG

                      *           *            
         92 TCTTGATTTTCGTTTTATT-TAAGGAAATTTTAGG
          1 TCTTGATTTTGGTTTTATTAT-TGGAAATTTTAGG

                                              * 
        126 TCTTGATTTTGGTTTTATTGA-TGGAAATTTTGAAG
          1 TCTTGATTTTGGTTTTATT-ATTGGAAATTTT-AGG

                *      *    *  *             *
        161 TCTTCATTTTGTTTTTGTTCTTGGAAATTTTAGT
          1 TCTTGATTTTGGTTTTATTATTGGAAATTTTAGG

                              
        195 TCTTGATTTTGGTTTTAT
          1 TCTTGATTTTGGTTTTAT

        213 ATGTATATTA


Statistics
Matches: 100,  Mismatches: 16, Indels: 10
        0.79            0.13        0.08

Matches are distributed among these distances:
  33    1  0.01
  34   71  0.71
  35   28  0.28

ACGTcount: A:0.20, C:0.05, G:0.18, T:0.57


Consensus pattern (34 bp):   
TCTTGATTTTGGTTTTATTATTGGAAATTTTAGG

Found at i:191 original size:69 final size:68

Alignment explanation


    Indices: 58--212  Score: 190
    Period size: 69  Copynumber: 2.3  Consensus size: 68

         48 AAGTCTTGAC

                       *                    *     *                          
         58 TCTTGATTTTGTTTTTATTATTGGAAAATTTAGGTCTTGATTTTCGTTTTATTTAAGGAAATTTT
          1 TCTTGATTTTGGTTTTATTATTGGAAAATTTAAGTCTTCATTTTCGTTTTATTTAAGGAAATTTT

               
        123 AGG
         66 AGG

                                        *                             **     
        126 TCTTGATTTTGGTTTTATTGA-TGGAAATTTTGAAGTCTTCATTTT-GTTTT-TGTTCTTGGAAA
          1 TCTTGATTTTGGTTTTATT-ATTGGAAAATTT-AAGTCTTCATTTTCGTTTTAT-TT-AAGGAAA

                  *
        188 TTTTAGT
         62 TTTTAGG

                              
        195 TCTTGATTTTGGTTTTAT
          1 TCTTGATTTTGGTTTTAT

        213 ATGTATATTA


Statistics
Matches: 76,  Mismatches: 7, Indels: 7
        0.84            0.08        0.08

Matches are distributed among these distances:
  67    1  0.01
  68   34  0.45
  69   41  0.54

ACGTcount: A:0.20, C:0.05, G:0.18, T:0.57


Consensus pattern (68 bp):   
TCTTGATTTTGGTTTTATTATTGGAAAATTTAAGTCTTCATTTTCGTTTTATTTAAGGAAATTTT
AGG
Done.